Problem running shoot "No such file or directory: '.sh.ogs.txt.gz'"

[nkaml]

when I run: python shoot candidate_sequences.fasta OrthoFinder/Results_Mar28/diamond_all_sequences.subtrees.fa I get the following error Traceback (most recent call last): File "/home/........./envs/orthofinder/lib/python3.9/runpy.py", line 197, in _run_module_as_main return _run_code(code, main_globals, None, File "/home//........./anaconda3/envs/orthofinder/lib/python3.9/runpy.py", line 87, in _run_code exec(code, run_globals) File "/home//........./tools/SHOOT/shoot/main.py", line 296, in main(db, args.infile, opts) File "/home/........./tools/SHOOT/shoot/main.py", line 72, in main ogs, scores = og_assign.assign(fn_for_use, q_ultra_sens=opts.search_high_sens) File "/home/........./tools/SHOOT/shoot/og_assigner.py", line 53, in assign ogs, scores = self.og_from_diamond_results(fn_results) File "/home/........./tools/SHOOT/shoot/og_assigner.py", line 92, in og_from_diamond_results with gzip.open(fn_og_results_out, 'rt') as infile: File "/home/........./anaconda3/envs/orthofinder/lib/python3.9/gzip.py", line 58, in open binary_file = GzipFile(filename, gz_mode, compresslevel) File "/home/........./anaconda3/envs/orthofinder/lib/python3.9/gzip.py", line 173, in init fileobj = self.myfileobj = builtins.open(filename, mode or 'rb') FileNotFoundError: [Errno 2] No such file or directory: 'candidate_sequences.fasta.sh.ogs.txt.gz'

What is the problem?

[Luponsky]

Hello @nadiak987 did you solve the problem?? L

[nkaml]

didn't really solve it but I think I ran the diamond blast manually and after that ran the script again and it worked. diamond blastp --db OrthoFinder/Results_xxx/diamond_profile_sequences.iqtree..d10_min20_kmeans.fa -q candidate_sequences.fa -o candidate_sequences.fa.sh.ogs.txt.gz --quiet -e 0.001 --compress 1 -p 8

[Luponsky]

Thank you :)